The Systems Biology Graphical Notation

被引：570

作者：

Le Novere, Nicolas ^{[1
]}

Hucka, Michael ^{[2
]}

Mi, Huaiyu ^{[3
]}

Moodie, Stuart ^{[4
]}

Schreiber, Falk ^{[5
,6
]}

Sorokin, Anatoly ^{[7
]}

Demir, Emek ^{[8
]}

Wegner, Katja ^{[9
]}

Aladjem, Mirit I. ^{[10
]}

Wimalaratne, Sarala M. ^{[11
]}

Bergman, Frank T. ^{[12
]}

Gauges, Ralph ^{[13
]}

Ghazal, Peter ^{[4
,14
]}

Kawaji, Hideya ^{[15
]}

Li, Lu ^{[1
]}

Matsuoka, Yukiko ^{[16
]}

Villeger, Alice ^{[17
,18
]}

Boyd, Sarah E. ^{[19
]}

Calzone, Laurence ^{[20
]}

Courtot, Melanie ^{[21
]}

Dogrusoz, Ugur ^{[22
]}

Freeman, Tom C. ^{[14
,23
]}

Funahashi, Akira ^{[24
]}

Ghosh, Samik ^{[16
]}

Jouraku, Akiya ^{[24
]}

Kim, Sohyoung ^{[10
]}

Kolpakov, Fedor ^{[25
,26
]}

Luna, Augustin ^{[10
]}

Sahle, Sven ^{[13
]}

Schmidt, Esther ^{[1
]}

Watterson, Steven ^{[4
,22
]}

Wu, Guanming ^{[27
]}

Goryanin, Igor ^{[4
]}

Kell, Douglas B. ^{[18
,28
]}

Sander, Chris ^{[8
]}

Sauro, Herbert ^{[12
]}

Snoep, Jacky L. ^{[29
]}

Kohn, Kurt ^{[10
]}

Kitano, Hiroaki ^{[16
,30
,31
]}

机构：

[1] EMBL European Bioinformat Inst, Hinxton, England

[2] CALTECH, Pasadena, CA 91125 USA

[3] SRI Int, Menlo Pk, CA 94025 USA

[4] Univ Edinburgh, Ctr Syst Biol Edinburgh, Edinburgh, Midlothian, Scotland

[5] Leibniz Inst Plant Genet & Crop Plant Res, Gatersleben, Germany

[6] Univ Halle Wittenberg, Inst Comp Sci, Halle, Germany

[7] Univ Edinburgh, Sch Informat, Edinburgh, Midlothian, Scotland

[8] Mem Sloan Kettering Canc Ctr, Computat Biol Ctr, New York, NY 10021 USA

[9] Univ Hertfordshire, Sci & Technol Res Inst, Hatfield AL10 9AB, Herts, England

[10] NCI, Bethesda, MD 20892 USA

[11] Univ Auckland, Auckland Bioengn Inst, Auckland 1, New Zealand

[12] Univ Washington, Dept Bioengn, Seattle, WA 98195 USA

[13] Heidelberg Univ, BIOQUANT, Heidelberg, Germany

[14] Univ Edinburgh, Sch Med, Div Pathway Med, Edinburgh, Midlothian, Scotland

[15] RIKEN, OMICS Sci Ctr, Yokohama, Kanagawa, Japan

[16] Syst Biol Inst, Tokyo, Japan

[17] Univ Manchester, Sch Comp Sci, Manchester, Lancs, England

[18] Manchester Interdisciplinary Bioctr, Manchester, Lancs, England

[19] Monash Univ, Fac Informat Technol, Clayton Sch Informat Technol, Melbourne, Vic 3004, Australia

[20] Inst Curie, INSERM, U900, Paris, France

[21] British Columbia Canc Res Ctr, Terry Fox Lab, Vancouver, BC V5Z 1L3, Canada

[22] Bilkent Univ, Bilkent Ctr Bioinformat, Ankara, Turkey

[23] Univ Edinburgh, Roslin Inst, Edinburgh, Midlothian, Scotland

[24] Keio Univ, Dept Biosci & Informat, Kouhoku Ku, Yokohama, Kanagawa 223, Japan

[25] Inst Syst Biol, Novosibirsk, Russia

[26] Design Technol Inst Digital Tech SB RAS, Novosibirsk, Russia

[27] Ontario Inst Canc Res, Toronto, ON, Canada

[28] Univ Manchester, Sch Chem, Manchester, Lancs, England

[29] Univ Stellenbosch, Dept Biochem, Matieland, South Africa

[30] Sony Comp Sci Labs, Tokyo, Japan

[31] Okinawa Inst Sci & Technol, Okinawa, Japan

来源：

NATURE BIOTECHNOLOGY | 2009年 / 27卷 / 08期

基金：

英国生物技术与生命科学研究理事会;

关键词：

COLLABORATIVE CONSTRUCTION; REPRESENTATION; DIAGRAM;

D O I：

10.1038/nbt.1558

中图分类号：

Q81 [生物工程学（生物技术）]; Q93 [微生物学];

学科分类号：

071005 ; 0836 ; 090102 ; 100705 ;

摘要：

Circuit diagrams and Unified Modeling Language diagrams are just two examples of standard visual languages that help accelerate work by promoting regularity, removing ambiguity and enabling software tool support for communication of complex information. Ironically, despite having one of the highest ratios of graphical to textual information, biology still lacks standard graphical notations. The recent deluge of biological knowledge makes addressing this deficit a pressing concern. Toward this goal, we present the Systems Biology Graphical Notation (SBGN), a visual language developed by a community of biochemists, modelers and computer scientists. SBGN consists of three complementary languages: process diagram, entity relationship diagram and activity flow diagram. Together they enable scientists to represent networks of biochemical interactions in a standard, unambiguous way. We believe that SBGN will foster efficient and accurate representation, visualization, storage, exchange and reuse of information on all kinds of biological knowledge, from gene regulation, to metabolism, to cellular signaling.

引用

页码：735 / 741

页数：7

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